1 23
Journal of Chemical Crystallography
ISSN 1074-1542 Volume 49 Number 2
J Chem Crystallogr (2019) 49:106-112 DOI 10.1007/s10870-018-0734-2
Synthesis, Crystal Structure and
Anti-leukemic Activity of
4-{4-[(4-(2-
Oxo-2,3-dihydro-1H-benzimidazol-1-
yl)piperidin-1-yl)benzyl]}-3-phenyl-3H-pyrrolo[2,3-c]quinoline
Jean Guillon, Stéphane Moreau, Vanessa
Desplat, Marian Vincenzi, Noël Pinaud,
Solène Savrimoutou, Sandra Rubio,
1 23
Your article is protected by copyright and
all rights are held exclusively by Springer
Science+Business Media, LLC, part of
Springer Nature. This e-offprint is for personal
use only and shall not be self-archived in
electronic repositories. If you wish to
self-archive your article, please use the accepted
manuscript version for posting on your own
website. You may further deposit the accepted
manuscript version in any repository,
provided it is only made publicly available 12
months after official publication or later and
provided acknowledgement is given to the
original source of publication and a link is
inserted to the published article on Springer's
website. The link must be accompanied by
the following text: "The final publication is
available at link.springer.com”.
Vol:.(1234567890)
Journal of Chemical Crystallography (2019) 49:106–112 https://doi.org/10.1007/s10870-018-0734-2
1 3
BRIEF COMMUNICATION
Synthesis, Crystal Structure and Anti-leukemic Activity
of 4-{4-[(4-(2-Oxo-2,3-dihydro-1H-benzimidazol-1-yl)piperidin-1-yl)
benzyl]}-3-phenyl-3H-pyrrolo[2,3-c]quinoline
Jean Guillon1 · Stéphane Moreau1 · Vanessa Desplat2 · Marian Vincenzi1 · Noël Pinaud3 · Solène Savrimoutou1 · Sandra Rubio1 · Luisa Ronga1 · Filomena Rossi4 · Mathieu Marchivie5
Received: 13 July 2017 / Accepted: 11 September 2018 / Published online: 17 September 2018 © Springer Science+Business Media, LLC, part of Springer Nature 2018
Abstract
The title compound
4-{4-[(4-(2-oxo-2,3-dihydro-1H-benzimidazol-1-yl)piperidin-1-yl)benzyl]}-3-phenyl-3H-pyrrolo[2,3-c]quinoline 1, a compound that showed cytotoxic potential against two leukemia cell lines, has been synthesized via a
multi-step pathway. This compound was characterized by single-crystal X-ray diffraction, IR, MS, elemental analysis,
1H and 13C NMR. The crystal (C
37H33H5O, Mr = 563.68) belongs to orthorhombic, space group Pbcn with cell
param-eters a = 30.198(2) Å, b = 12.5097(11) Å, c = 15.6648(13) Å, V = 5917.7(8) Å3, Z = 8, Dc = 1.265 g/cm3, CuKα radiation,
λ = 1.54180 Å, µ = 0.611 mm−1, F(000) = 2384, the final R = 0.0491 and wR = 0.1585 for 5698 observed reflections with
I > 2σ(I).
Graphical Abstract
The antileukemial 4-{4-[(4-(2-oxo-2,3-dihydro-1H-benzimidazol-1-yl)piperidin-1-yl)benzyl]}-3-phenyl-3H-pyrrolo[2,3-c] quinoline was synthesized and characterized by X-ray crystallography.
Keywords Antileukemial · Pyrrolo[2,3-c]quinoline · Heterocycle
Introduction
Acute leukemia is one of the most aggressive hematopoietic malignancies and is characterized by abnormal proliferation of the immature cells of the hematopoietic system. Acute myeloblastic leukemia (AML) is a heterogeneous group of
* Jean Guillon
jean.guillon@u-bordeaux.fr
Extended author information available on the last page of the article
107 Journal of Chemical Crystallography (2019) 49:106–112
1 3
hematological malignancies whose prognosis remains poordue to a large number of relapses. Thus, identifying and understanding the treatment-related resistance mechanisms is of major interest to improve the therapeutic strategy [1]. Therefore, there is an urgent need for new therapeutics, which could act as anti-leukemic agents with less or mini-mal side effects.
Heterocyclic compounds attracted a lot of attention because of its wide spread biological activities. Among them, the pyrrolo[2,3-c]quinoline heterocyclic framework constitutes the basis of an important class of compounds possessing interesting biological activities. These com-pounds have been reported to serve as key intermediates for the assembly of several heterocycles including antiparasitic agents [2–5], antitubercular agents [6], and PDE4 inhibitors [7], a target for numerous CNS disorders.
In the course of our work devoted to discover new com-pounds employed in the cancer chemotherapy, we previ-ously identified several series of substituted heterocyclic derivatives endowed with good activity towards the human leukemia cells [8–12]. In this context, and as an extension of our work on the development of new anticancer cyclic drugs, we decided to substitute our previous hetero-cyclic pharmacophores by a new bio-isostere heterohetero-cyclic analogue, i.e. the bioactive pyrrolo[2,3-c]quinoline moi-ety. Thus, we report herein on the synthesis and structural characterization of one of them, i.e. the 4-{4-[(4-(2-oxo- 2,3-dihydro-1H-benzimidazol-1-yl)piperidin-1-yl)benzyl]}-3-phenyl-3H-pyrrolo[2,3-c]quinoline 1. The cytotoxicity of this new pyrrolo[2,3-c]quinoline derivative was then evaluated against two myeloid leukemia cell lines (K562 and HL60). The preliminary biological results exhibited inhibitory activity in a submicromolar range against these two different leukemia cell lines, including K562 and HL60 with IC50 of 16 and 1 µM, respectively. The present crystal
structure determination will not only help us understand the detailed three-dimensional arrangement of the compound, which could be useful for designing new derivatives, but will also contribute to the structural database in which there are very few structures containing the pyrrolo[2,3-c]quinoline skeleton. Moreover, solid-state data could be used to clarify further the mechanism of action implicating this anti-prolif-erative pyrrolo[2,3-c]quinoline derivative through a possible interaction with different kinases targets.
Experimental
Reagents and Measurements
Reagents were used as received without additional purifica-tion. Melting points were determined with an SM-LUX-POL Leitz hot-stage microscope and are uncorrected. IR spectra
were recorded on a NICOLET 380FT-IR spectrophotom-eter. NMR spectra were recorded with tetramethylsilane as an internal standard using a BRUKER AVANCE 300 spec-trometer. Splitting patterns have been reported as follows: s = singlet; d = doublet; dd = double doublet; ddd = double double doublet; m = multiplet. Analytical TLC were car-ried out on 0.25 precoated silica gel plates (POLYGRAM SIL G/UV254) and visualization of compounds after UV light irradiation. Silica gel 60 (70–230 mesh) was used for column chromatography. High resolution mass spectra (elec-trospray in positive mode, ESI+) were recorded on a Waters Q-TOF Ultima apparatus. Mass spectra were recorded on an Ultraflex III TOF/TOF system (Bruker Daltonics, Bremen, Germany), equipped with 200 Hz smartbeam laser (355 nm) and operating in reflectron positive ion mode. Mass spectra were acquired over the m/z range 300–5000 by accumu-lating data from 1000 laser shots for each spectrum. The instrumental conditions employed to analyze molecular spe-cies were the following: ion source 1: 25.08 kV; ion source 2: 21.98 kV, lens: 11.03 kV, pulsed ion extraction: 30 ns, reflector: 26.39 kV, reflector 2: 13.79 kV. Matrix suppres-sion was activated by deflection mode: suppressuppres-sion up to 450 Da. Mass calibration was performed for each sample with a peptide calibration mixture (8,206,195, Peptide Cali-bration Standard, Bruker Daltonics). The instrument was controlled using Bruker’s flexControl 3.4 software and mass spectra were analyzed in Bruker’s FlexAnalysis 3.4 software (Bruker Daltonics, Billerica, MA, USA).
Synthesis
The ethyl 4-methyl-3-(2-nitrophenyl)pyrrole-2-carboxylate 3 was synthesized starting from styrene 2 using a Barton–Zard reaction [13] according to the procedure reported before [14], which was further treated as depicted in Scheme 1 to afford the title compound 1.
Ethyl
4-methyl-3-(2-nitrophenyl)-1-phenylpyrrole-2-carboxylate (4)
A mixture of the ester 3 (0.95 g, 3.46 mmol), anhydrous K2CO3 (0.82 g, 5.96 mmol), 12 mL of bromobenzene and
cuprous iodide (0.11 g, 0.6 mmol) was heated under reflux for 4 h. The reaction mixture was cooled and filtered, and the residue was washed with toluene. The filtrate and washing were combined, and the solvent was removed. The residue was chromatographed on silica gel using CH2Cl2 as eluent
to give the ethyl 4-methyl-3-(2-nitrophenyl)-1-phenylpyr-role-2-carboxylate 4 as a yellow oil (0.98 g, 81%). 1H NMR
(300 MHz, CDCl3): δ 0.76 (t, 3H, J = 7.20 Hz, CH3), 1.97
(s, 3H, CH3), 3.84 (q, 2H, J = 7.20 Hz, OCH2), 6.85 (s, 1H,
H-5), 7.28–7.47 (m, 6H, C6H5 and H-6′), 7.52 (ddd, 1H,
108 Journal of Chemical Crystallography (2019) 49:106–112
1 3
J = 8.10, 7.50 and 0.9 Hz, H-4′), 7.64 (ddd, 1H, J = 8.10,
7.50 and 0.9 Hz, H-5′), 8.03 (dd, 1H, J = 8.10 and 0.9 Hz, H-3′). Anal. Calcd. for C20H18N2O4: C, 68.56; H, 5.18; N,
8.00%. Found: C, 68.72; H, 5.26; N, 7.89%.
1-Methyl-3-phenyl 5H-pyrrolo[2,3-c]quinolin-4-one (5)
A suspension of 4 (0.98 g, 2.8 mmol) and iron powder (0.63 g, 11.2 mmol) in 14 mL of acetic acid was heated under reflux for 1.5 h. The reaction mixture was cooled, suspended in 200 mL of a 1 M aqueous solution of HCl, agitated, then filtered off, washed with HCl 1 M (10 mL), water, Et2O and dried to give lactam 5 as a fluffy white solid
(0.50 g, 65%). m.p. > 260 °C; 1H NMR (300 MHz,
DMSO-d6): δ 2.53 (s, 3H, CH3), 7.22–7.45 (m, 9H, H-2, C6H5, H-7,
H-8 and H-9), 8.07 (dd, 1H, J = 8.10 and 1.0 Hz, H-6), 11.37 (s, 1H, NH). Anal. Calcd. for C18H14N2O: C, 78.81; H, 5.14;
N, 10.21%. Found: C, 79.05; H, 5.18; N, 10.34%.
4-Chloro-1-methyl-3-phenylpyrrolo[2,3-c]quinoline (6)
A solution of 5H-pyrrolo[2,3-c]quinolin-4-one 5 (0.48 g, 1.75 mmol) in POCl3 (5 mL) was refluxed for 4 h. After
removing excess of reactive under vacuum, the residue was carefully dissolved in water at 0 °C and the resulting solution was made basic with sodium carbonate. The pre-cipitate was filtered, washed with water, and solubilized in
CH2Cl2. The organic layer was dried, filtered and
evapo-rated to dryness. The residue was chromatographed on silica gel using CH2Cl2 as eluent to give the
4-chloro-1-me-thyl-3-phenylpyrrolo[2,3-c]quinoline 6 as a white crys-tals (0.45 g, 88%). m.p. 165–167 °C; 1H NMR (300 MHz,
CDCl3): δ 2.71 (s, 3H, CH3), 7.23 (s, 1H, H-2), 7.41–7.52 (m, 2H, C6H5), 7.49–7.65 (m, 3H, C6H5), 7.61–7.65 (m, 2H,
H-7 and H-8), 8.15 (dd, J = 8.00 and 1.10 Hz, H-9), 8.43 (dd,
J = 8.00 and 1.10 Hz, H-6). Anal. Calcd. for C18H13ClN2:
C, 73.85; H, 4.48; N, 9.57%. Found: C, 74.03; H, 4.55; N, 9.67%.
4-(4-Formylphenyl)-1-methyl-3-phenylpyrrolo[2,3-c] quinoline (7)
To suspension of
4-chloro-1-methyl-3-phenylpyrrolo[2,3-c]quinoline 6 (0.45 g, 1.54 mmol), and Pd(PPh3)4 (0.09 g,
0.077 mmol) in a mixture of toluene/EtOH (21/2 mL) under nitrogen were added K2CO3 (0.23 g, 1.69 mmol) and
phenylboronic acid (0.26 g, 1.7 mmol). The reaction mix-ture was refluxed for 24 h, and the cooled suspension was extracted with CH2Cl2 (2 × 30 mL). The organic layer was washed with a saturated solution of NaCl (35 mL), and the combined organic extracts were dried over sodium sulfate, filtered, and evaporated under reduced pressure. The crude residue was triturated in ethanol. The resulting precipitate was filtered, washed with ethanol, and purified by column
Scheme 1 Synthetic route of compound 1
109 Journal of Chemical Crystallography (2019) 49:106–112
1 3
chromatography on silica gel using dichloromethane aselu-ent gave the pure product 7 as white solid (0.30 g, 54%). m.p. 211–213 °C; 1H NMR (300 MHz, CDCl 3): δ 2.83 (s, 3H, CH3), 6.95–6.99 (m, 2H, C6H5), 7.05–7.09 (m, 3H, C6H5), 7.32 (s, 1H, H-2′), 7.48 (d, 2H, J = 8.10 Hz, H-3 and H-5), 7.59 (d, 2H, J = 8.10 Hz, H-2 and H-6), 7.67–7.71 (m, 2H, H-7′ and H-8′), 8.29 (dd, J = 8.10 and 1.20 Hz, H-9), 8.57 (dd, J = 8.10 and 1.20 Hz, H-6). Anal. Calcd. for C25H18N2O: C, 82.85; H, 5.01; N, 7.73%. Found: C, 83.06; H, 4.88; N, 7.79%.
4-{4-[(4-(2-Oxo-2,3-dihydro-1H-benzimidazol-1-yl)
piperidin-1-yl)benzyl]}-3-phenyl-3H-pyrrolo[2,3-c]quinoline (1)
The pH of a solution of the aldehyde 7 (0.30 g, 0.83 mmol) and 4-(2-ketobenzimidazolin-1-yl)piperidine (0.22 g, 0.99 mmol) in 21 mL methanol was adjusted to 6 by the dropwise addition of acetic acid. Powered sodium cyano-borohydride (0.14 g, 2.28 mmol) was then added, and the resultant mixture was refluxed for 5 h. After removal of the methanol by rotary evaporation, the residue was triturated in water and extracted with dichloromethane. The organic layer was washed with water, dried over magnesium sul-fate and evaporated to dryness. Column chromatography of the residue on silica gel using methanol-chloroform (1/9) as eluent gave the crude product. This solid was then tritu-rated with diethyl ether, filtered, washed with diethyl ether and dried under reduced pressure to give the compound 1 (0.40 g, 85%). Colourless prisms suitable for X-ray analy-sis were obtained by slow evaporation of the compound from a methanol-dichloromethane solution (2/8—v/v) at + 20 °C. m.p. > 300 °C; IR νmax (KBr)/cm−1 3131 (NH), 1697 (C=O), 1624 (C=N); 1H NMR (300 MHz, CDCl 3): δ 1.83–1.88 (m, 2H, CH2 pip.), 2.07–2.20 (m, 2H, CH2 pip.), 2.43–2.58 (m, 2H, CH2 pip.), 2.82 (s, 3H, CH3), 2.95–3.00 (m, 2H, CH2 pip.), 3.49 (s, 2H, CH2N), 4.38–4.50 (m,
1H, CH pip.), 6.98–7.13 (m, 9H, C6H5, 3H benzimid. and
H-2), 7.28–7.35 (m, 5H, H benzimid., H-2′, H-3′, H-5′ and H-6′), 7.62–7.70 (m, 2H, H-7 and H-8), 8.32 (dd, J = 8.10 and 1.20 Hz, H-9), 8.56 (dd, J = 8.10 and 1.20 Hz, H-6), 10.07 (s, 1H, NH). 13C NMR (75 MHz, DMSO-d 6): δ 13.9 (CH3), 27.2 (CH2), 48.7 (CH), 52.9 (NCH2), 60.0 (NCH2), 110.3 (C-2), 110.9 (C-2 and C-6 phenyl), 111.2 (C-1), 115.1 (C-3a), 117.7 (C-9a), 118.9 (C-3a benzimid), 122.1 (C-4 and C-7 benzimid), 122.2 (C-5 and C-6 benzimid), 122.6 (C-8), 124.5 (C-7a benzimid), 126.0 (C-4 phenyl), 127.5 (C-4 ben-zyl), 128.6 (C-2 and C-6 benben-zyl), 129.9 (C-9), 130.5 (C-3 and C-5 benzyl), 131.4 (C-6), 132.3 (C-3 and C-5 phenyl), 133.4 (C-1 benzyl), 134.1 (C-9b), 134.7 (C-1 phenyl), 139.3 (C-5a), 143.9 (C-7), 145.2 (CO), 155.5 (C-4); MALDI-TOF MS m/z [M+H]+ Calcd for C
37H34N5O: 564.276, Found:
564.284. Anal. Calcd. for C37H33N5O: C, 78.84; H, 5.90; N, 12.42%. Found: C, 79.08; H, 6.03; N, 5.97%.
X‑ray Crystallographic Analysis
A colourless single crystal of the title compound 1 with dimensions of 0.12 mm × 0.10 mm × 0.08 mm was mounted on the top of a glass fiber. All of the data were collected with a R-Axis Rapid Rigaku MSC diffractometer using Cu Kα radiation and a graphite monochromator. The cell parameters were then refined using the full set of collected reflections in the range 6.83° < θ < 72.16°. All reflections were used for unit-cell refinement. A total of 74,565 reflections were col-lected, of which 5698 were independent (Rint = 0.0406) and
4473 were observed with I > 2σ(I). The structure was solved by direct methods and successive Fourier difference synthe-ses and refined on (F2) by full-matrix least-squares methods
respectively with the SHELXS-97 and SHELXL-97 pro-grams [15]. All non-H atoms were refined anisotropically and the positions of the H atoms were deduced from coor-dinates of the non-H atoms they are linked to, confirmed by Fourier synthesis and treated according to the riding model during refinement. H atoms were included for structure fac-tor calculations, but not refined. All graphical contents have been performed using the OLEX2 interface [16].
The final refinement gave R = 0.0491, wR = 0.1585 (w = 1/ [σ2(F
02) + (0.1256P)2 + 0.3505P], where P = (F02 + 2Fc2)/3), S = 1.010, (Δ/σ)max = 0.001, (Δρ)max = 0.307 and (Δρ)min = − 0.215 e/Å3. Crystallographic data (excluding
structure factors) for the structural analysis has been depos-ited with the Cambridge Crystallographic Data Centre, No. CCDC-888296. Copies of this information may be obtained free of charge from: The Director, CCDC, 12 Union Road, Cambridge, CB2 1EZ, UK. Fax: +44(1223)336-033, E-mail: deposit@ccdc.cam.ac.uk or web: http://www.ccdc.cam. ac.uk.
Crystal data and structure refinement details are listed in Table 1. The selected bond lengths and bond angles are given in Table 2.
Results and Discussion
Synthesis
The synthesis of this new pyrrolo[2,3-c]quinoline derivative
1 is depicted in Scheme 1. The ethyl 4-methyl-3-(2-nitrophe-nyl)pyrrole-2-carboxylate 3 was synthesized using a Barton-Zard reaction [13]; the (E)-1-(2-nitrophenyl)-2-nitropropene
2 reacted with one equivalent of ethyl isocyanide previously
anionized with one equivalent of 1,8-diazabicyclo[5.4.0] undec-7-ene (DBU) leading to pyrrole 3 (Scheme 1) [14]. The preparation of N-aryl pyrrole 4 was obtained by
110 Journal of Chemical Crystallography (2019) 49:106–112
1 3
nucleophilic substitution of the ethyl pyrrole-2-carboxylate
3 with bromobenzene using potassium carbonate as the base
and copper iodide as catalyst [17]. Reduction of the nitro moiety of 4 with iron in hot glacial acetic acid produced
the spontaneous ring closure onto the ester to afford the desired tricyclic pyrrolo[2,3-c]quinoline 5 through a one-pot reduction-cyclization step [8]. The lactam 5 was subse-quently chlorodehydroxylated with phosphorous oxychlo-ride, leading to the 4-chloroquinoline 6. 4-(Pyrrolo[2,3-c] quinolin-4-yl)benzaldehyde 7 was easily prepared by a direct Suzuki–Miyaura cross-coupling reaction of 4-chloroquino-line 6 with 4-formylphenylboronic acid performed in the presence of Pd(PPh3)4 as a catalyst, and in the presence of potassium carbonate used as the base [8–12]. The aldehyde
7 was then engaged in a reductive amination with NaBH3CN
and the 4-(2-ketobenzimidazolin-1-yl)piperidine to give the substituted pyrroloquinoline 1.
Crystal Structure
The 3D spatial determination established by X-ray crystal-lography confirmed the structure of the title compound 1 in the solid state as anticipated on the basis of IR, MS, elemen-tal analysis, 1H and 13C NMR data. The structure
elucida-tion of compound 1, unambiguously established by X-ray crystallography, makes it possible to validate the structures of our first three key intermediates in the synthesis of 1; i.e. : the substituted pyrrole 3 through a Barton-Zard reaction, its N-arylation leading to compound 4, and the key inter-mediate lactam 5. The collection of crystallographic data on this pyrrolo[2,3-c]quinoline structure 1, which shows promising antitumoral activities, should bring new interest-ing clues that will help in the step-by-step comprehension of the mechanism of action of this new class of cytotoxic agent. These crystallographic data could also be an inter-esting starting point in a future molecular modelling study. The final compound crystallizes in the orthorhombic space group Pbcn with cell parameters a = 30.198(2) Å,
b = 12.5097(11) Å, c = 15.6648(13) Å, α = 90, β = 90,
γ = 90, V = 5917.7(8) Å3, Z = 8, M
r = 563.68, Dc = 1.265 Mg/
m3, S = 1.010, µ = 0.611 mm−1, F(000) = 2384, the final
R = 0.0491 and wR2 = 0.1585 for 5698 observed
reflec-tions with (I > 2σ(I)). The molecular structure of the 4-{4-[(4-(2-oxo-2,3-dihydro-1H-benzimidazol-1-yl)
Table 1 Crystal data and structure refinement Empirical formula C37H33N5O Formula weight 563.68
Crystal system, space group Orthorhombic, Pbcn
Unit cell dimensions
a (Å) 30.198(2) b (Å) 12.5097(11) c (Å) 15.6648(13) α (°) 90 β (°) 90 γ (°) 90 Volumn (Å3) 5917.7(8) Z 8 Density (Mg/m3) 1.265 Absorption coefficient (mm−1) 0.611 F(000) 2384 Crystal size (mm3) 0.12 × 0.10 × 0.08 Theta range for data collection (°) 6.83 to 72.16 Index ranges − 37 ≤ h ≤ 37 − 13 ≤ k ≤ 15 − 18 ≤ l ≤ 19 Reflections collected 74,565
Reflections unique 5698 [R (int) = 0.0406] Completeness to theta = 72.16 97.5%
Data/restraints/parameters 5698/0/389 Max. and min. transmission 0.9528 and 0.9303
Refinement method Full-matrix least-squares on F2 Goodness-of-fit on F2 1.010
Final R indices [I > 2sigma(I)] R1 = 0.0491 wR2 = 0.1585 R indices (all data) R1 = 0.0607
wR2 = 0.1709 Largest diff. peak and hole (e/Å−3) 0.307 and − 0.215 CCDC No 888296
Table 2 Selected bond lengths (Å), and bond angles (°)
Bond Dist. Bond Dist. Bond Dist. N(15)–C(16) 1.322(2) N(7)–C(6) 1.436(2) C(38)–O(39) 1.2336(19) C(8)–N(7) 1.377(2) C(31)–N(34) 1.466(2) C(16)–C(21) 1.485(2) C(11)–N(7) 1.387(2) N(34)–C(38) 1.3836(19) N(28)–C(29) 1.464(2) C(9)–C(10) 1.434(2) N(37)–C(38) 1.360(2) N(28)–C(33) 1.4636(19) Angle (°) Angle (°) Angle (°) N(28)–C(29)–C(30) 110.49(14) C(11)–C(16)–C(21)–C(22) 47.1(2) C(29)–C(30)–C(31) 110.14(14) N(28)-C(33)-C(32) 111.64(13) C(11)-N(7)-C(6)-C(5) 44.6(2) C(33)–C(32)–C(31) 110.44(14)
111 Journal of Chemical Crystallography (2019) 49:106–112
1 3
piperidin-1-yl)benzyl]}-3-phenyl-3H-pyrrolo[2,3-c]quino-line 1 is depicted in Fig. 1, and the selected bond lengths and bond angles are listed in Table 2.
The fused pyrrolo[2,3-c]quinoline moiety is almost pla-nar, and the maximum deviation from planarity is found for N(7) lying 0.102(2) Å from the plane defined by the hetero-tricyclic system. All atoms that constitute this system have a planar-trigonal configuration, i.e., they are sp2-hybridized.
The tricyclic system can be regarded as heteroaromatic: it contains 14 p-electrons. In the pyrrole five-membered ring containing atom N(7), the intra-ring bond angles range from 105.85(15)° to 111.32(15)°; the N(7)–C(8) and N(7)–C(11) bond lengths are 1.377(2) and 1.387(3) Å, respectively, which indicates that the geometry around N(7) is normal for
sp2 hybridization. Moreover, the C(9)–C(10) bond, noticed
at 1.434(2) Å, is longer than the standard aromatic C–C bond [18] and is in agreement with the values observed in the 4-methyl-3H-pyrrolo[2,3-c]quinoline [19]. The C(1)–C(6) phenyl ring makes a dihedral angle of 57.93(5)° with the mean plane of the pyrrolo[2,3-c]quinoline moiety, and the C(21)–C(26) phenyl group at 4-position makes a dihedral angle of 49.15(4)° with the plane of the pyrroloquinoline ring. The torsion angles C(11)–C(16)–C(21)–C(22) and C(11)–N(7)–C(6)–C(5) are ± 47.1(2)° and ± 44.6(2)°, respectively. Presumably, the substituents on C(16) and N(7) in this derivative are turned apart for steric reasons.
The C(16)–N(15) double bond in the quinoline ring was noticed at 1.322(2) Å, as typically observed for Car=N bonds [17].
The piperidine ring has the chair conformation; the nitrogen atom N(28) and the carbon C(31) are displaced on either side from the least-squares plane C29–C30–C32–C33 by 0.691(2) and 0.651(2) Å, respectively. Moreover, the angles N(28)–C(29)–C(30) and N(28)–C(33)–C(32) are found in the same range 110.49(14) and 111.64(13)°. The 1,3-dihydrobenzimidazol-2-one ring system is almost planar, with the largest deviation being for atom O(39) [0.059(1) Å]. The average bond distances and angles for
this 1,3-dihydrobenzimidazol-2-one system are in agree-ment with those of previous studies on 2-oxo-2,3-dihydro-1H-benzimidazol-1-yl compounds in the literature [10, 11]. Molecules of the title compound are linked by a double H-bonds between the O(39) and N(37) atoms of the imida-zole rings to form dimers. The crystal cohesion is ensured by short Van der Waals contacts and C–H⋯π interactions in the others directions (Fig. 2).
Cytotoxicity in Leukemia Cell Lines
This new 4-{4-[(4-(2-oxo-2,3-dihydro-1H-benzimidazol-1-yl)piperidin-1-yl)benzyl]}-3-phenyl-3H-pyrrolo[2,3-c] quinoline 1 was then tested in MTS assay for its in vitro anti-proliferative activity against two human myeloid leukaemia
Fig. 1 X-ray crystal structure of compound 1 with our number-ing scheme. Displacement ellipsoids are drawn at the 30% probability level
Fig. 2 Perspective view of the molecular packing of compound 1. H atoms have been omitted for clarity except when they were involved in an intermolecular interaction
112 Journal of Chemical Crystallography (2019) 49:106–112
1 3
cell lines (K562 and HL60). Against the HL60 human acute myeloblastic leukemia cell line, compound 1 exhib-ited potent cytotoxicity with an IC50 value of 1 µM, while
this quinoline 1 showed moderate antiproliferative activity against the K562 chronic myeloid leukemia cell line, i.e. IC50 = 16 µM.
Conclusion
In this work, we have synthesized the new 4-{4-[(4-(2-oxo- 2,3-dihydro-1H-benzimidazol-1-yl)piperidin-1-yl)benzyl]}-3-phenyl-3H-pyrrolo[2,3-c]quinoline, an original compound which showed antileukemic activity in a submicromolar range on the human leukemic cell lines K562 and HL60 (myeloid cell lines). We report herein on the structural char-acterization of this new pyrrolo[2,3-c]quinoline scaffold. The present crystal structure determination could now help us to understand the detailed three-dimensional arrangement of this compound, which could be used to generate a broad variety of substituted pyrrolo[2,3-c]quinoline of medicinal interest. Moreover, solid-state data could be used to clarify the mechanism of action implicating this anti-leukemic com-pound through a possible interaction with different kinases targets.
Acknowledgements This publication was supported by a grant from Ligue Contre le Cancer (Comité Aquitaine-Charentes, Bordeaux, France).
References
1. Lichtman MA (2008) Oncologist 13:126
2. Carroll AR, Duffy S, Avery VM (2010) J Org Chem 75:8291 3. Okanya PW, Mohr KI, Gerth K, Jansen R, Mueller R (2011) J Nat
Prod 74:603
4. Mhaske SB, Lande JR (2013) WO 2013117986
5. Campos Aguiar AC, Panciera M, Simao dos Santos EF, Singh MK, Garcia ML, Eduardo de Souza G, Nakabashi M, Costa JL, Garcia CRS, Oliva G, Roque Duarte Correia C, Carvalho Guido RV (2018) J Med Chem 61:5547
6. Akula M, Sridevi JP, Yogeeswari P, Sriram D, Bhattacharya A (2014) Monatsh Chem 145:811
7. Panarese JD, Lindsley CW (2012) Org Lett 14:5808
8. Desplat V, Moreau S, Gay A, Belisle-Fabre S, Thiolat D, Massip S, Mossalayi D, Jarry C, Guillon J (2010) J Enzyme Inhib Med Chem 25:204
9. Desplat V, Moreau S, Belisle-Fabre S, Thiolat D, Uranga J, Lucas R, Massip S, de Moor L, Jarry C, Mossalayi D, Sonnet P, Déléris G, Guillon J (2011) J Enzyme Inhib Med Chem 26:657
10. Desplat V, Vincenzi M, Lucas R, Moreau S, Savrimoutou S, Pin-aud N, Lesbordes J, Peyrilles E, Marchivie M, Routier S, Sonnet P, Rossi F, Ronga L, Guillon J (2016) Eur J Med Chem 113:214 11. Guillon J, Vincenzi M, Pinaud N, Ronga L, Rossi F, Savrimoutou
S, Moreau S, Desplat V, Marchivie M (2016) Struct Chem Crys-tallogr Commun 2:18
12. Desplat V, Vincenzi M, Lucas R, Moreau S, Savrimoutou S, Rubio S, Pinaud N, Bigat D, Enriquez E, Marchivie M, Routier S, Sonnet P, Rossi F, Ronga L, Guillon J (2017) ChemMedChem 12:940 13. Barton DHR, Kervagoret J, Zard SZ (1990) Tetrahedron 46:7587 14. Alazard JP, Boye O, Gillet B, Guenard D, Beloeil JC, Thal C
(1993) Bull Soc Chim Fr 130:779
15. Sheldrick GM (2008) Acta Crystallogr Sect A 64:112
16. Dolomanov OV, Bourhis LJ, Gildea RJ, Howard JAK, Puschmann H (2009) J Appl Crystallogr 42:339
17. Inaba S, Akatsu M, Hirohashi T, Yamamoto H (1976) Chem Pharm Bull 24:1076
18. Allen FH, Kennard O, Watson DG, Brammer L, Orpen AG, Taylor R (1987) J Chem Soc Perkin Trans 2: S1
19. Kanjana-opas A, Panphon S, Fun HK, Chantrapromma S (2006) Acta Crystallogr Sect E E62:o2728
Affiliations
Jean Guillon1 · Stéphane Moreau1 · Vanessa Desplat2 · Marian Vincenzi1 · Noël Pinaud3 · Solène Savrimoutou1 · Sandra Rubio1 · Luisa Ronga1 · Filomena Rossi4 · Mathieu Marchivie5
1 Univ. Bordeaux, UFR des Sciences Pharmaceutiques, INSERM U1212 / CNRS UMR 5320, Laboratoire ARNA, 33076 Bordeaux Cedex, France
2 Univ. Bordeaux, UFR des Sciences Pharmaceutiques, INSERM U1035, Cellules Souches Hématopoïétiques Normales et Leucémiques, 33076 Bordeaux Cedex, France 3 Univ. Bordeaux, ISM - CNRS UMR 5255,
33405 Talence Cedex, France
4 Department of Pharmacy and CIRPeB, University of Naples “Federico II”, 80134 Naples, Italy
5 Univ. Bordeaux, ICMCB CNRS-UPR 9048, 33608 Pessac Cedex, France
